PUBLICATION

Genomic organization, expression, and phylogenetic analysis of Ca2+ channel β4 genes in 13 vertebrate species

Authors
Ebert, A.M., McAnelly, C.A., Handschy, A.V., Mueller, R.L., Horne, W.A., and Garrity, D.M.
ID
ZDB-PUB-080825-25
Date
2008
Source
Physiological Genomics   35(2): 133-144 (Journal)
Registered Authors
Garrity, Deborah
Keywords
Ca2+ channel, zebrafish, subunit, development
MeSH Terms
  • Alternative Splicing
  • Amino Acid Sequence
  • Animals
  • Calcium Channels/classification*
  • Calcium Channels/genetics*
  • Calcium Channels/metabolism
  • Evolution, Molecular
  • Gene Expression
  • Genome*
  • Genomics
  • Humans
  • In Situ Hybridization
  • Introns
  • Molecular Sequence Data
  • Phylogeny
  • Protein Subunits/genetics
  • Protein Subunits/metabolism
  • RNA, Messenger/metabolism
  • Sequence Alignment
  • Vertebrates
  • Zebrafish/genetics
  • Zebrafish/metabolism
PubMed
18682574 Full text @ Physiol. Genomics
Abstract
The Ca(2+) channel beta subunits, encoded by CACNB genes 1-4, are Membrane-Associated GUanylate Kinase (MAGUK) proteins. As auxiliary subunits of voltage-gated Ca(2+) channels, the beta subunits facilitate membrane trafficking of the pore-forming alpha1 subunits and regulate voltage-dependent channel gating. In this report, we investigate whether two zebrafish beta4 genes, beta4.1 and beta4.2, have diverged in structure and function over time. Comparative expression analyses indicated that beta4.1 and beta4.2 were expressed in separable domains within the developing brain and other tissues. Alternative splicing in both genes was subject to differential temporal and spatial regulation, with some organs expressing different subsets of beta4.1 and beta4.2 transcript variants. We used several genomic tools to identify and compare predicted cDNAs for eight teleost and five tetrapod beta4 genes. Teleost species had either one or two beta4 paralogs, whereas each tetrapod species contained only one. Teleost beta4.1 and beta4.2 genes had regions of sequence divergence, but when compared to tetrapod beta4s, they exhibited similar exon/intron structure, strong conservation of residues involved in alpha1 subunit binding, and similar 5' alternative splicing. Phylogenetic results are consistent with the duplicate teleost beta4 genes resulting from the teleost whole genome duplication. Following duplication, the beta4.1 genes have evolved faster than beta4.2 genes. We identified disproportionately large second and third introns in several beta4 genes, which we propose may provide regulatory elements contributing to their differential tissue expression. In sum, both mRNA expression data and phylogenetic analysis support the evolutionary divergence of beta4.1 and beta4.2 subunit function.
Genes / Markers
Figures
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Expression
Phenotype
Mutation and Transgenics
Human Disease / Model Data
Sequence Targeting Reagents
Fish
Antibodies
Orthology
Engineered Foreign Genes
Mapping
Errata and Notes